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Snakemake

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  1. snakemake snakemake Public

    This is the development home of the workflow management system Snakemake. For general information, see

    HTML 2.3k 562

  2. snakemake-wrappers snakemake-wrappers Public

    This is the development home of the Snakemake wrapper repository, see

    Python 216 186

  3. snakefmt snakefmt Public

    The uncompromising Snakemake code formatter

    Python 154 29

  4. snakemake-github-action snakemake-github-action Public

    A Github action for running a Snakemake workflow

    Shell 56 12

  5. snakemake-workflow-catalog snakemake-workflow-catalog Public

    A statically generated catalog of available Snakemake workflows

    HTML 32 11

  6. snakedeploy snakedeploy Public

    deploy a snakemake pipeline directly from version control (under development)

    Python 21 8

Repositories

Showing 10 of 51 repositories
  • snakefmt Public

    The uncompromising Snakemake code formatter

    snakemake/snakefmt’s past year of commit activity
    Python 154 MIT 29 15 2 Updated Jan 8, 2025
  • snakemake Public

    This is the development home of the workflow management system Snakemake. For general information, see

    snakemake/snakemake’s past year of commit activity
    HTML 2,340 MIT 562 1,057 79 Updated Jan 8, 2025
  • snakemake-executor-plugin-slurm Public

    A Snakemake executor plugin for submitting jobs to a SLURM cluster

    snakemake/snakemake-executor-plugin-slurm’s past year of commit activity
    Python 21 MIT 22 25 3 Updated Jan 8, 2025
  • snakemake-wrappers Public

    This is the development home of the Snakemake wrapper repository, see

    snakemake/snakemake-wrappers’s past year of commit activity
    Python 216 186 28 30 Updated Jan 6, 2025
  • snakemake-hpc-teaching-material Public
    snakemake/snakemake-hpc-teaching-material’s past year of commit activity
    TeX 6 CC-BY-SA-4.0 2 13 3 Updated Jan 6, 2025
  • snakemake-storage-plugin-irods Public

    Snakemake storage plugin for handling input and output on iRODS

    snakemake/snakemake-storage-plugin-irods’s past year of commit activity
    Python 0 MIT 2 1 2 Updated Dec 30, 2024
  • snakemake-interface-executor-plugins Public

    This package provides a stable interface for interactions between Snakemake and its executor plugins.

    snakemake/snakemake-interface-executor-plugins’s past year of commit activity
    Python 7 MIT 11 7 0 Updated Dec 21, 2024
  • snakemake-github-action Public

    A Github action for running a Snakemake workflow

    snakemake/snakemake-github-action’s past year of commit activity
    Shell 56 MIT 12 14 1 Updated Dec 10, 2024
  • snakemake-wrapper-utils Public

    Utility functions and classes shared between Snakemake wrappers

    snakemake/snakemake-wrapper-utils’s past year of commit activity
    Python 3 MIT 7 0 3 Updated Dec 5, 2024
  • snakemake-storage-plugin-fs Public

    A Snakemake storage plugin that reads and writes from a locally mounted filesystem using rsync.

    snakemake/snakemake-storage-plugin-fs’s past year of commit activity
    Python 2 MIT 4 3 0 Updated Nov 29, 2024
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